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Paketti: qcumber (1.0.14+dfsg-1)

quality control of genomic sequences

QCPipeline is a tool for quality control. The workflow is as follows: 

 1. Quality control with FastQC
 2. Trim Reads with Trimmomatic
 3. Quality control of trimmed reads with FastQC
 4. Map reads against reference using bowtie2
 5. Classify reads with Kraken

Muut pakettiin qcumber liittyvät paketit

  • depends
  • recommends
  • suggests
  • dep: debconf (>= 0.5)
    Debian configuration management system
    tai debconf-2.0
    näennäispaketti, jonka toteuttaa cdebconf, cdebconf-udeb, debconf
  • dep: libjs-angularjs
    lets you write client-side web applications as if you had a smarter browser
  • dep: libjs-bootstrap
    HTML, CSS and JS framework
  • dep: libjs-d3
    JavaScript visualization library for HTML and SVG
  • dep: libjs-jquery
    JavaScript library for dynamic web applications
  • dep: python3
    interactive high-level object-oriented language (default python3 version)
  • dep: python3-biopython
    Python library for bioinformatics (implemented in Python 3)
  • dep: python3-jinja2
    small but fast and easy to use stand-alone template engine
  • dep: python3-matplotlib
    Python based plotting system in a style similar to Matlab (Python 3)
  • dep: r-base-core
    GNU R core of statistical computation and graphics system
  • dep: r-bioc-savr
    GNU R parse and analyze Illumina SAV files
  • dep: r-cran-ggplot2
    implementation of the Grammar of Graphics
  • dep: r-cran-quantreg
    GNU R package for quantile regression

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